Locus 7211

Sequence ID X_DroMel_CAF1
Location 18,056,021 – 18,056,221
Length 200
Max. P 0.837262
window11779 window11780 window11781

overview

Window 9

Location 18,056,021 – 18,056,141
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.33
Mean single sequence MFE -22.53
Consensus MFE -21.77
Energy contribution -21.77
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.97
SVM decision value 0.74
SVM RNA-class probability 0.837262
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18056021 120 - 22224390
CCAUGUUUGUUUAAAUGACAAACUGCUGUUUGUUAACCGAAUAAAAUGGAAAGCCAAGCAGAAACUACCGAAAAAAGAAACAAGCGUGAAGUGAAGCAGCAACGUAAAAUGUAAAACAAA
.(((((((((((...((((((((....))))))))...........(((....))).....................)))))))))))..((...(((...........)))...))... ( -22.60)
>DroSec_CAF1 718 120 - 1
CCAUGUUUGUUUAAAUGACAAACUGCUGUUUGUUAACCGAAUAAAAUGGAAAGCCAAGCAGAAACUACCGAAAAAAGAAACAAGCGUGAAGGGUAGCAGCAACGUAAAAUGUAAAACAAA
.(((((((((((...((((((((....))))))))...........(((....))).....................)))))))))))..(..(.(((...........))).)..)... ( -22.10)
>DroSim_CAF1 717 120 - 1
CCAUGUUUGUUUAAAUGACAAACUGCUGUUUGUUAACCGAAUAAAAUGGAAAGCCAAGCAGAAACUACCGAAAAAAGAAACAAGCGUGAAGGGUAGCAGCAGCGUAAAAUGUAAAACAAA
.(((((((((((...((((((((....))))))))...........(((....))).....................))))))))))).......((....))................. ( -22.90)
>consensus
CCAUGUUUGUUUAAAUGACAAACUGCUGUUUGUUAACCGAAUAAAAUGGAAAGCCAAGCAGAAACUACCGAAAAAAGAAACAAGCGUGAAGGGUAGCAGCAACGUAAAAUGUAAAACAAA
.(((((((((((...((((((((....))))))))...........(((....))).....................)))))))))))..........(((........)))........ (-21.77 = -21.77 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,056,061 – 18,056,181
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 87.17
Mean single sequence MFE -22.80
Consensus MFE -18.50
Energy contribution -18.83
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.83
Structure conservation index 0.81
SVM decision value 0.09
SVM RNA-class probability 0.579287
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18056061 120 - 22224390
UACCAUACCCCCAUUGCUGCCGAAUCAUCUGGCUACCCCCCCAUGUUUGUUUAAAUGACAAACUGCUGUUUGUUAACCGAAUAAAAUGGAAAGCCAAGCAGAAACUACCGAAAAAAGAAA
................((((.((....))(((((......((((.(((((((...((((((((....))))))))...)))))))))))..))))).))))................... ( -23.80)
>DroSec_CAF1 758 103 - 1
UACCGUUCCCC---------------GUCUGGCCACC--ACCAUGUUUGUUUAAAUGACAAACUGCUGUUUGUUAACCGAAUAAAAUGGAAAGCCAAGCAGAAACUACCGAAAAAAGAAA
...........---------------(..((((....--.((((.(((((((...((((((((....))))))))...)))))))))))...))))..)..................... ( -22.30)
>DroSim_CAF1 757 103 - 1
UACCGUUCCCC---------------GUCUGGCCACC--ACCAUGUUUGUUUAAAUGACAAACUGCUGUUUGUUAACCGAAUAAAAUGGAAAGCCAAGCAGAAACUACCGAAAAAAGAAA
...........---------------(..((((....--.((((.(((((((...((((((((....))))))))...)))))))))))...))))..)..................... ( -22.30)
>consensus
UACCGUUCCCC_______________GUCUGGCCACC__ACCAUGUUUGUUUAAAUGACAAACUGCUGUUUGUUAACCGAAUAAAAUGGAAAGCCAAGCAGAAACUACCGAAAAAAGAAA
..........................((.((((.......((((.(((((((...((((((((....))))))))...)))))))))))...)))).))..................... (-18.50 = -18.83 +   0.33)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,056,101 – 18,056,221
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.01
Mean single sequence MFE -28.37
Consensus MFE -25.31
Energy contribution -24.87
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -1.59
Structure conservation index 0.89
SVM decision value 0.44
SVM RNA-class probability 0.737132
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18056101 120 - 22224390
GGGAGGAUAAACAGGCCAAGUCACUCUCACAUGGCAUUCCUACCAUACCCCCAUUGCUGCCGAAUCAUCUGGCUACCCCCCCAUGUUUGUUUAAAUGACAAACUGCUGUUUGUUAACCGA
((...(((((((((((((.((.......)).)))).......................((((.......))))...........(((((((.....)))))))..)))))))))..)).. ( -28.30)
>DroSec_CAF1 798 102 - 1
GGG-GGAUAAACAGGCCAAGUCACUCUCACAUGGCCUUCCUACCGUUCCCC---------------GUCUGGCCACC--ACCAUGUUUGUUUAAAUGACAAACUGCUGUUUGUUAACCGA
(((-((((....((((((.((.......)).)))))).......)))))))---------------(..((((...(--(.((.(((((((.....))))))))).))...))))..).. ( -29.30)
>DroSim_CAF1 797 103 - 1
GGGAGGAUAAACAGGCCAAGUCACUCUCACAUGGCCUUCCUACCGUUCCCC---------------GUCUGGCCACC--ACCAUGUUUGUUUAAAUGACAAACUGCUGUUUGUUAACCGA
((.((((.....((((((.((.......)).)))))))))).))......(---------------(..((((...(--(.((.(((((((.....))))))))).))...))))..)). ( -27.50)
>consensus
GGGAGGAUAAACAGGCCAAGUCACUCUCACAUGGCCUUCCUACCGUUCCCC_______________GUCUGGCCACC__ACCAUGUUUGUUUAAAUGACAAACUGCUGUUUGUUAACCGA
((...(((((((((((((.((.......))((((........)))).......................)))))..........(((((((.....)))))))...))))))))..)).. (-25.31 = -24.87 +  -0.44)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:53 2006